Episodic sexual transmission of HIV revealed by molecular phylodynamics von LEWIS, F, HUGHES, G.J, RAMBAUT, A, POZNIAK, A, BROWN, A.J.L

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Transmission Network Parameters Estimated From HIV Sequences for a Nationwide Epidemic von Brown, Andrew J. Leigh, Lycett, Samantha J., Weinert, Lucy, Hughes, Gareth J., Fearnhill, Esther, Dunn, David T.

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The Global Transmission Network of HIV-1 von Wertheim, Joel O., Brown, Andrew J. Leigh, Hepler, N. Lance, Mehta, Sanjay R., Richman, Douglas D., Smith, Davey M., Pond, Sergei L. Kosakovsky

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Dynamics of the emergence and establishment of a newly dominant genotype of Japanese encephalitis virus throughout Asia von Schuh, Amy J, Ward, Melissa J, Leigh Brown, Andrew J, Barrett, Alan D T

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Phylodynamics of Infectious Disease Epidemics von Volz, Erik M, Kosakovsky Pond, Sergei L, Ward, Melissa J, Leigh Brown, Andrew J, Frost, Simon D. W

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Molecular phylodynamics of the heterosexual HIV epidemic in the United Kingdom von Hughes, Gareth J, Fearnhill, Esther, Dunn, David, Lycett, Samantha J, Rambaut, Andrew, Leigh Brown, Andrew J

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Phylogeography of Japanese encephalitis virus: genotype is associated with climate von Schuh, Amy J, Ward, Melissa J, Brown, Andrew J Leigh, Barrett, Alan D T

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A large population sample of African HIV genomes from the 1980s reveals a reduction in subtype D over time associated with propensity for CXCR4 tropism von Grant, Heather E, Roy, Sunando, Williams, Rachel, Tutill, Helena, Ferns, Bridget, Cane, Patricia A, Carswell, J Wilson, Ssemwanga, Deogratius, Kaleebu, Pontiano, Breuer, Judith, Leigh Brown, Andrew J

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Determining the phylogenetic and phylogeographic origin of highly pathogenic avian influenza (H7N3) in Mexico von Lu, Lu, Lycett, Samantha J, Leigh Brown, Andrew J

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High-Level Drug-Resistant Mutations among HIV-1 Subtype A6 and CRF02_AG in Kazakhstan von Sanaubarova, Ainur, Pujol-Hodge, Emma, Dzissyuk, Natalya, Lemey, Philippe, Vermund, Sten H, Leigh Brown, Andrew J, Ali, Syed

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Quantifying predictors for the spatial diffusion of avian influenza virus in China von Lu, Lu, Leigh Brown, Andrew J, Lycett, Samantha J

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Phylogenetic analyses reveal HIV-1 infections between men misclassified as heterosexual transmissions von HUE, Stéphane, BROWN, Alison E, LEIGH BROWN, Andrew J, RAGONNET-CRONIN, Manon, LYCETT, Samantha J, DUNN, David T, FEARNHILL, Esther, DOLLING, David I, POZNIAK, Anton, PILLAY, Deenan, DELPECH, Valerie C

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A high HIV-1 strain variability in London, UK, revealed by full-genome analysis: Results from the ICONIC project von Yebra, Gonzalo, Frampton, Dan, Gallo Cassarino, Tiziano, Raffle, Jade, Hubb, Jonathan, Ferns, R Bridget, Waters, Laura, Tong, C Y William, Kozlakidis, Zisis, Hayward, Andrew, Kellam, Paul, Pillay, Deenan, Clark, Duncan, Nastouli, Eleni, Leigh Brown, Andrew J

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HIV-TRACE (TRAnsmission Cluster Engine): a Tool for Large Scale Molecular Epidemiology of HIV-1 and Other Rapidly Evolving Pathogens von Kosakovsky Pond, Sergei L, Weaver, Steven, Leigh Brown, Andrew J, Wertheim, Joel O

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Employing phylogenetic tree shape statistics to resolve the underlying host population structure von Kayondo, Hassan W., Ssekagiri, Alfred, Nabakooza, Grace, Bbosa, Nicholas, Ssemwanga, Deogratius, Kaleebu, Pontiano, Mwalili, Samuel, Mango, John M., Leigh Brown, Andrew J., Saenz, Roberto A., Galiwango, Ronald, Kitayimbwa, John M.

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Phylogenetic Tools for Generalized HIV-1 Epidemics: Findings from the PANGEA-HIV Methods Comparison von Ratmann, Oliver, Hodcroft, Emma B, Pickles, Michael, Cori, Anne, Hall, Matthew, Lycett, Samantha, Colijn, Caroline, Dearlove, Bethany, Didelot, Xavier, Frost, Simon, Hossain, A S Md Mukarram, Joy, Jeffrey B, Kendall, Michelle, Kühnert, Denise, Leventhal, Gabriel E, Liang, Richard, Plazzotta, Giacomo, Poon, Art F Y, Rasmussen, David A, Stadler, Tanja, Volz, Erik, Weis, Caroline, Leigh Brown, Andrew J, Fraser, Christophe

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An evolutionary model-based algorithm for accurate phylogenetic breakpoint mapping and subtype prediction in HIV-1 von Kosakovsky Pond, Sergei L, Posada, David, Stawiski, Eric, Chappey, Colombe, Poon, Art F Y, Hughes, Gareth, Fearnhill, Esther, Gravenor, Mike B, Leigh Brown, Andrew J, Frost, Simon D W

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Detection of HIV-1 Transmission Clusters from Dried Blood Spots within a Universal Test-and-Treat Trial in East Africa von Pujol-Hodge, Emma, Salazar-Gonzalez, Jesus F, Ssemwanga, Deogratius, Charlebois, Edwin D, Ayieko, James, Grant, Heather E, Liegler, Teri, Atkins, Katherine E, Kaleebu, Pontiano, Kamya, Moses R, Petersen, Maya, Havlir, Diane V, Leigh Brown, Andrew J

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The contribution of viral genotype to plasma viral set-point in HIV infection von Hodcroft, Emma, Hadfield, Jarrod D, Fearnhill, Esther, Phillips, Andrew, Dunn, David, O'Shea, Siobhan, Pillay, Deenan, Leigh Brown, Andrew J

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Adaptation to different human populations by HIV-1 revealed by codon-based analyses von Pond, Sergei L Kosakovsky, Frost, Simon D W, Grossman, Zehava, Gravenor, Michael B, Richman, Douglas D, Brown, Andrew J Leigh

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